Sequence
atgc intronic sequence ATGC exonic sequence...atgccatactccataatagacaattgttaatccccctccttgtatttctgttacaagataaactatgcctggcctgacagtttatggtttgttatggcagGTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATGATGGGTAGGCCGGATGCCCCCGATCTGAAGGGGTTGATACCACGTTCTC
Basic information
species | Glycine max |
transcript | GLYMA13G32450.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G32450.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G21270.1 (Arabidopsis thaliana), 3'ss of exon 11
atgccatactccataatagacaattgttaatccccctccttgtatttctgttacaagataaactatgcctggcctgacagtttatggtttgttatggcagGTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATGATGGGTAGGCCGGATGCCCCCGATCTGAAGGGGTTGATACCACGTTCTC
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gcacagagtgcttgtgtagatatggctccttttttaagtgtcaaatttgaagccaggttctattgttgatgcctctatcttaaatattttttggatacagGTTTGTATCTTTGCCTACGGTCAGACCGGTTCTGGAAAGACCTACACCATGATGGGCCGGCCTGAGGCGCCAGATCAGAAAGGACTGATCCCTCGATCAC
upper sequence: GLYMA13G32450.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G05190.1 (Arabidopsis thaliana), 3'ss of exon 11
--atgccatactccataatagacaattgttaatccccctccttgtatttctgttacaagataaactatgcctggcctgacagtttatggtttgttatggcagGTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATGATGGGTAGGCCGGATGCCCCCGATCTGAAGGGGTTGATACCACGTTCTC
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gattcctttgttactgcaccaactcttgtttaaatgagacag-acatcactttgactgattcttctgt-cattgcatctttctcaaatctttgtggacacagGTTTGTATTTTTGCCTACGGTCAGACAGGTTCTGGCAAAACCTATACCATGATGGGCAGGCCTGAAACACCAGAACAGAAAGGACTGATCCCTCGATCAC
upper sequence: GLYMA13G32450.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 11
atgccatactccataatagacaattgttaatccccctccttgtatttc----tgttacaagataaactatgc----ctggcctgacagtttatggtttgttatggcagGTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATGATGGGTAGGCCGGATGCCCCCGATCTGAAGGGGTTGATACCACGTTCTC
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-------gcttattggttg-caattgtctgattacctcttaatgttgtaaaatgcaatgaaatattttgtataattctcatttgattcttgttttgttctctttgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCATMapped 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|208032382|gb|GD828599.1|GD828599EST: GAGATATCACAGCTGGTACAAAGTGCGCTTGATGGATACAAG GTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATG
genomic: GAGATATCACAGCTGGTACAAAGTGCGCTTGATGGATACAAGgtgattatta ... gttatggcagGTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATG
EST:
gi|193686968|gb|FK630001.1|FK630001EST: ATGGATACAAG GTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATG
genomic: ATGGATACAAGgtgattatta ... gttatggcagGTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgttacaagataaactatgcctggcctgacagtttatggtttgttatggcagGTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATGATGGGTAGGCCGGATGCCCCCGATCTGAAGGGGTTGATACCACGTTCTC
gcctgac putative branch site (score: 3)
ataaactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgccatactccataatagacaattgttaatccccctccttgtatttctgttacaagataaactatgcctggcctgacagtttatggtttgttatggcagGTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATGATGGGTAGGCCGGATGCCCCCGATCTGAAGGGGTTGATACCACGTTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - catactc
- - - - - - - - - - - - - - -atccccc
- - - - - - - - - - - - - - - - - - -ccttgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - aagataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctgaca