Sequence
atgc intronic sequence ATGC exonic sequence...ttcctgcataactgccatttgatattgcatctggtataaataatcgtaaggttgcatgatctatcctgtttccccaaatattaatttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCCTATTGGATGGCTCCTGAG
Basic information
species | Glycine max |
transcript | GLYMA09G24970.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G24970.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 6
----ttcctgcataactgccatttgatattgcatctggtataaataatcgtaaggttgcatgatcta-tcctgtttccccaa-atattaatttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCCTATTGGATGGCTCCTGAG
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tagtttcttgtgtatcga--atatcaacctatgcttgacct---tagtcatgatgtt-catgttaaaatccagcttacctgacatatttcattacatgtcatgcagATCACTGGGCAGTCATGTCCTTTATCATTCAAGGGAAGCCCATACTGGATGGCACCTGAG
upper sequence: GLYMA09G24970.2 (Glycine max), 3'ss of exon 6
lower sequence: PP1S8_299V6.1 (Physcomitrella patens), 3'ss of exon 8
----ttcctgcataactgccatttgatattgcatctggtataaataat-cgtaaggttgcatgatctatcctgtttccccaaatattaatttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCCTATTGGATGGCTCCTGAG
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ctcaagacggttaaaatacttctttgcgct-ccttggttgttagcaattcatggtattgcaaga---gtagggatcttatacttcctgacatac-tgctctgcagATTTCTGCTCAATCTTTTCTCAAGTCCTTTAAGGGAAGCCCGTATTGGATGGCTCCTGAG
upper sequence: GLYMA09G24970.2 (Glycine max), 3'ss of exon 6
lower sequence: PP1S10_200V6.2 (Physcomitrella patens), 3'ss of exon 8
---ttcctgcataactgccatttgatattgcatctggtataaataatcgtaaggttgcatgatctatcctgtttccccaaatattaatttgcat-attttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCCTATTGGATGGCTCCTGAG
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gtatttttccagtccttggtttttgaaatgctgct--tttcgattctc-tcttgttagaaggtactctttgtt-cctcatgtatcctgagacattgtgatgcagATTTCTGCTCAATCCTTTCTCCAGTCTTTCAAGGGAAGCCCTTACTGGATGGCTCCTGAG
upper sequence: GLYMA09G24970.2 (Glycine max), 3'ss of exon 6
lower sequence: PP1S387_39V6.1 (Physcomitrella patens), 3'ss of exon 6
-----ttcctgcataactgccatttgatattgcatctggtataaataatcgtaaggttgcatgatctatcctgtttccccaaatattaatttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCCTATTGGATGGCTCCTGAG
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gttaagtcacgtaggataggccttcgtgttcctcactgtcagcagt--ccatgctgtcgcaagag-tatgg-atctcacgtgctcctggcacgt-tgctctgcagATTTCTGCTCAATCTTTTCTCCAGTCTTTCAAGGGAAGCCCTTATTGGATGGCTCCTGAGMapped 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|5753494|gb|AI960781.1|AI960781EST: TAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCAT ATAACAGGGCAATC
genomic: TAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCATgtaagcttgg ... tattttgcagATAACAGGGCAATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaggttgcatgatctatcctgtttccccaaatattaatttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCCTATTGGATGGCTCCTGAG
tattaat putative branch site (score: 2)
aaatattaatttgcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcctgcataactgccatttgatattgcatctggtataaataatcgtaaggttgcatgatctatcctgtttccccaaatattaatttgcatattttgcagATAACAGGGCAATCATGTCCATTATCATTCAAGGGAAGCCCCTATTGGATGGCTCCTGAG
-tcctgca
- - - - - -ctgccat
- - - - - - - - - - - - - gcatctg
- - - - - - - - - - - - - - - - - -ataaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - tgcatga