Sequence
atgc intronic sequence ATGC exonic sequencegtacttttaaattttaatggctattcaaggtgagcttttgctttaaataatgttgatttcatataccagGTTTATGAGACCGTAGAAGAAGGATCTTACATAAAAATGATTGACATGGCCAGTGGACATGGAGGGCAAATACAA
Basic information
species | Glycine max |
transcript | GLYMA14G37520.3 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G37520.3 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM5G824405_T02 (Zea mays), 3'ss of exon 11
---------------------------gtacttttaaattttaatggctattcaaggtgagcttttgctttaaataa---tgttgatttcatataccagGTTTATGAGACCGTAGAAGAAGGATCTTACATAAAAATGATTGACATGGCCAGTGGACATGGAGGGCAAATACAA
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gtctgtaattgccaaattatattaaatattatatcacaatacattttttgtcaagaatatagtatagttatatgtaaacattttgaaacctttt--cagGTCTATGAACCGGTGGAAGAAGGTTCTTACATAAAAATGATTGACATGGTTAGTGGGAAGGGGGGCCAACTAAAG
upper sequence: GLYMA14G37520.3 (Glycine max), 3'ss of exon 13
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 13
--------------------------------------gtactttt--aaattttaatggctattcaa-ggtgagcttttgcttta---------aataatgttga---------tttcatataccagGTTTATGAGACCGTAGAAGAAGGATCTTACATAAAAATGATTGACATGGCCAGTGGACATGGAGGGCAAATACAA
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gtcggtacacaaacctgcactttctaaacgtgtcctaattactttttaaagcttagttaacttttctttgatgcaccatcgtcttggtacttaagacaaatgttgagcttactctttttttttgccagGTTTATGAGCCTGTAGAAGAAGGTTCGTACATCAAAATGATTGATATGGTCAGTGGGAACGGTGGACAGATACAA
upper sequence: GLYMA14G37520.3 (Glycine max), 3'ss of exon 13
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 13
------------------------gtacttttaaattttaatggctattcaaggtgagcttttgctttaaataat--gttgatttcatataccagGTTTATGAGACCGTAGAAGAAGGATCTTACATAAAAATGATTGACATGGCCAGTGGACATGGAGGGCAAATACAA
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gtagtttcctggagcttacttatgatgattggtactactcatatttgtattttgtgaaagatttctgaaaataaacaattgtgctcctgtaccagGTTTATGAGCCAGTGGAAGAAGGCTCTTACATCAAAATGATTGATATGGTTGGTGGCCAAGATGGACAGATACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatggctattcaaggtgagcttttgctttaaataatgttgatttcatataccagGTTTATGAGACCGTAGAAGAAGGATCTTACATAAAAATGATTGACATGGCCAGTGGACATGGAGGGCAAATACAA
tttaaataatgttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttttaaattttaatggctattcaaggtgagcttttgctttaaataatgttgatttcatataccagGTTTATGAGACCGTAGAAGAAGGATCTTACATAAAAATGATTGACATGGCCAGTGGACATGGAGGGCAAATACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG