Sequence
atgc intronic sequence ATGC exonic sequenceggtatgttactttcaaacatcacagcctctttatgagatgtggtatggacaagaattgcattttagcttagctgcatcgtttctggaatttgtgcaGGGTTCATGTGTCAAGAAGCTTTCTGGAAAACCAAAGCTTGATGACAATAGAGCAACAAAGCAAGTTGTTGCACTTTTAAGTGCTCCACTTGATAAATAC
Basic information
species | Glycine max |
transcript | GLYMA17G37870.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM5G844195_T02 (Zea mays), 3'ss of exon 12
---------------------------------------------------------------------------ggtatgttactttcaaacatcacagcctctttatgagatgtggtatggacaaga-attgcattttagcttagctgcatcgtttctggaatttgtgcaGGGTTCATGTGTCAAGAAGCTTTCTGGAAAACCAAAGCTTGATGACAATAGAGCAACAAAGCAAGTTGTTGCACTTTTAAGTGCTCCACTTGATAAATAC-
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gtaagtcttctttaaacaactatatgatgtatgccccttctcttatggtctgtttgctgactcagcaagccattttttgttgtgctataattgatagcaaggcaatgatgcaatccattagtggtagtacaatgtcaattgaatcttctaactcattatatttgcttggacagGGTGCATGTGTCAAGAAACTTTCAGGCAAGGCAAAACTTGAAGATAGCAGGGCAACAAAGCAAATTGTTGCACTTCTTAGTGCTCCCCTGGAAAAATATA
upper sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM5G825524_T02 (Zea mays), 3'ss of exon 11
----------------------------------------------------------------ggtatgttactttcaaacatcacagcctctttatgagat-gtggtatggac----aagaattgcattttagcttag-ctgcatcgtttctggaatttgtgcaGGGTTCATGTGTCAAGAAGCTTTCTGGAAAACCAAAGCTTGATGACAATAGAGCAACAAAGCAAGTTGTTGCACTTTTAAGTGCTCCACTTGATAAATAC-
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gtaagtcttctttaaacaattatatggtttatgccgtctgtttgctgactcaagaagtcatttttttttgttgtactataat-tgataggaacttaggaaggcagtgatgtaatccactaatggtctaatgttaattcaatctaactcgttatatttgtctggacagGGTGCATGTGTCAAGAAACTTTCAGGCAAAGCAAAACTTGAAGATAGCAGGGCAACGAAGCAAATTGTTGCACTTCTTAGTGCTCCCCTAGAAAAATATA
upper sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 11
ggtatgttactttcaaacatcacagcctctttatgagatgtggtatggacaag---aattgcattttagcttagctgcatcgtttctggaatttgt-gcaGGGTTCATGTGTCAAGAAGCTTTCTGGAAAACCAAAGCTTGATGACAATAGAGCAACAAAGCAAGTTGTTGCACTTTTAAGTGCTCCACTTGATAAATAC-
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-ttcctttgtgtggaattcagagagcatctttgtgcagcttagattgcataaatgaagttcaatgatgggaggttttcttccttttgataatttttcacagGGAGCATGTGTTAAGAAACTCTCTGGCAAGCCAAAGCTTGAAGATAGTAAGGCAACAAAACAAATTGTTGCACTTTTGAGCGCCCCATTGGAGAAGTACAMapped 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|192309075|gb|FG999372.1|FG999372EST: TTTACTCTCCGTGTTCATCCGGATCGACTTGATTATGTGGACCAAGTACT GGGTTCATGTGTCAAGAAGCTTTCTGGAAAACCAAAGCTTGATGACAATAG
genomic: TTTACTCTCCGTGTTCATCCGGATCGACTTGATTATGTGGACCAAGTACTggtatgttac ... aatttgtgcaGGGTTCATGTGTCAAGAAGCTTTCTGGAAAACCAAAGCTTGATGACAATAG
EST:
gi|193391202|gb|FK357291.1|FK357291EST: TTTACTCTCCGTGTTCATCCGGATCGACTTGATTATGTGGACCAAGTACT GGGTTCATGTGTCAAGAAGCTTTCTGGAAAACCAAAGCTTGATGACAATAG
genomic: TTTACTCTCCGTGTTCATCCGGATCGACTTGATTATGTGGACCAAGTACTggtatgttac ... aatttgtgcaGGGTTCATGTGTCAAGAAGCTTTCTGGAAAACCAAAGCTTGATGACAATAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtatggacaagaattgcattttagcttagctgcatcgtttctggaatttgtgcaGGGTTCATGTGTCAAGAAGCTTTCTGGAAAACCAAAGCTTGATGACAATAGAGCAACAAAGCAAGTTGTTGCACTTTTAAGTGCTCCACTTGATAAATAC
atttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtatgttactttcaaacatcacagcctctttatgagatgtggtatggacaagaattgcattttagcttagctgcatcgtttctggaatttgtgcaGGGTTCATGTGTCAAGAAGCTTTCTGGAAAACCAAAGCTTGATGACAATAGAGCAACAAAGCAAGTTGTTGCACTTTTAAGTGCTCCACTTGATAAATAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG