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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttttaccttgatcttgttttatgagaagtctcttgtctttggcggttcttttacctagttcttcacccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACACATTTTGGTTCTTTTGAAGCATTAATACAAAAAGTTAACGCAGAAGGTG

Basic information

species Glycine max
transcript GLYMA06G14960.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G14960.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0067g02990.t01 (Vitis vinifera), 3'ss of exon 2
-------------gtaagttttttaccttgatcttgttttatgagaagtctcttgtctttggcggttcttttacctagttcttc-----acccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACACATTTTGGTTCTTTTGAAGCATTAATACAAAAAGTTAACGCAGAAGGTG
              | || | ||| | ||| |||| | |  |      ||||||   | |  |  | | | ||  | |  | ||     |  |    ||||||||||||||||||||| || || ||||||||||| |||||||| |||||||||||||||||  | ||||||||  ||  |||| ||||  |||||||||
gtaagcttgttttcttagctctttgc-ttgctcttttctatttgtttatctcttaagtctctcattacatctatttggcgcatcgtaaaattccatcgcagGAAGGAGGTGGTGAACCCCCAAAAGGTTCACTGGGTTGGGCTATAGACACACATTTTGGTTCCATGGAAGCATTGGTAGCAAAAATTAATTCAGAAGGTG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|17022337|gb|BM093371.1|BM093371
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|254320557|gb|GR827006.1|GR827006
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|16348832|gb|BI974427.1|BI974427
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|19935063|gb|BQ080093.1|BQ080093
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|213597364|gb|DB962098.1|DB962098
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|58018298|gb|CX705040.1|CX705040
EST:     GTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|6719532|gb|AW307179.1|AW307179
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|298189799|gb|HO038202.1|HO038202
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|254320556|gb|GR827005.1|GR827005
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|16346801|gb|BI972396.1|BI972396
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|213614908|gb|DB957002.1|DB957002
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|12774096|gb|BG239023.1|BG239023
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|14999950|gb|BI320764.1|BI320764
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|58021102|gb|CX707844.1|CX707844
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|151397983|gb|EV267856.1|EV267856
EST:     GTCATGTCAGCCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|15589944|gb|BI674560.1|BI674560
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         CAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|16278828|gb|BI943116.1|BI943116
EST:     GTCACGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCCATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|16278070|gb|BI942710.1|BI942710
EST:     GTCACGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCCATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|23728745|gb|BU762433.1|BU762433
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|23734076|gb|BU765256.1|BU765256
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|31310328|gb|CD395531.1|CD395531
EST:     AGGTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: AGGTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|15000638|gb|BI321452.1|BI321452
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|16276941|gb|BI942121.1|BI942121
EST:     TAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: TAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|209718432|gb|BW666244.1|BW666244
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|14258764|gb|BG881672.1|BG881672
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|58017804|gb|CX704546.1|CX704546
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
EST: gi|19346087|gb|BM890967.1|BM890967
EST:     GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGT                         GAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA
genomic: GTCATGTCAACCATTCTATTTTCTGGAAAAATCTAGCTCCTGTTCGTgtaagttttt ... ccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagaagtctcttgtctttggcggttcttttacctagttcttcacccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACACATTTTGGTTCTTTTGAAGCATTAATACAAAAAGTTAACGCAGAAGGTG
                                     ttcttcaccc  CT-rich tract
                        ttctttta  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttttttaccttgatcttgttttatgagaagtctcttgtctttggcggttcttttacctagttcttcacccatgtgcagGAAGGAGGTGGTGAACCACCCAAGGGTTCACTGGGATGGGCTATTGACACACATTTTGGTTCTTTTGAAGCATTAATACAAAAAGTTAACGCAGAAGGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC