Sequence
atgc intronic sequence ATGC exonic sequencegtttgcttcttttctgcaaagatttatatgtgaatgattctaaccgtgaatcatctttgatagtttctgattggagtgcattttttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAATTGTTCAAGAATAGGATCATGGAAGAAAGGAAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G52780.1 (Glycine max), 3'ss of exon 3
gtttgcttcttttctgcaaagatttatatgt------gaatgat-tctaaccgtgaatcatctttgatagtttctgattggagtg---catttt----ttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAATTGTTCAAGAATAGGATCATGGAAGAAAGGAAGC
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gtttgttctcttcctttattctttttcctgcttcttggaatgttatgttgttgtgagatag-tacattcttctatgataataatgacacacttttgttttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAGTCTGGTCCATCAATTGTGCACAGAAAGTGCTTCTAA----------------------------------
upper sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G10170.1 (Glycine max), 3'ss of exon 4
----gtttgcttcttttctgcaaagatttatatgtgaatgattctaaccgtgaa------tcatctttgatagt--ttctgattggagtgcattttttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAA-TTGTTC--AAGAATAGGATCATGGAAGAAAGGAAGC
||| |||| ||| | || | | | || || ||||| || ||| || || | | ||| || | |||||||||||||||||||| |||||||| || ||||| || ||||| |||||||| ||||| || || || |||||| |||| | ||||| | || |||| |
gtttgttctcttcattttttttcctgcttcttggaatgttatgtta-tcgtgagatacattcttctatgctaataataatgacacgaactgttgttttgagtgcagATGTGGATTGCAAAGGCAGAATATGACGAATCTGGTCCATCAATTGTGCACAGAAAGTGCTTCTAAACTGTTTCGATAGATAGGGTTATTGAAGGGAAAG---
upper sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G00850.1 (Glycine max), 3'ss of exon 3
gtttgcttcttttctgcaaagatttatatgtgaatgattctaaccgtgaatcatctttgatagtttctgat--tggagtgcattttttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAA-TTGTTCAAG-AATAGGATCATGGAAGAAAGGAAGC
|| || |||| |||| || ||| | | | | | | | | || || || || || || | | | |||||||||||||||||| || ||||| ||||| || |||||||| |||||||| || ||||| || || |||||| ||||| ||||| | || ||||||| |
gtctgtttctgttctttaa-----tatgactaattaactattaact---attgctttgaatgcttgctaatgatacaaactgtcgcttgagtgcagATGTGGATTGCGAAGGCAGAGTACGACGAGTCTGGACCATCAATTGTTCATAGAAAGTGCTTCTAAATTGTTTGGTTGATAGGGTTATTGAAGAAAAAGA--
upper sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G09290.3 (Glycine max), 3'ss of exon 4
gtttgcttcttttctgcaaagatttatatgtgaatgattctaaccgtgaatcatctttgatagtttctgattggagtgcattttttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAA-TTGTTCAAG-AATAGGATCATGGAAGAAAGGAAGC
|| || |||| |||| || ||| | | | | | | ||||| | | || | | ||| || |||||||||||||||||| || ||||| ||||| || |||||||| |||||||| || ||||| || || |||||| ||||| || |||||| | || ||||||| |
gtatgtttctgttctttaa-----tatgattaatgaactattgctttgaatgcttgctaatgata-caaatt-------atcgcttgagtgcagATGTGGATTGCGAAGGCAGAGTACGACGAGTCTGGACCATCAATTGTTCATAGAAAGTGCTTCTAAATTGTTTGAGCAATAGGGTTATTGAAGAAAAAGA--
upper sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 3'ss of exon 5
------------------------------------gtttgcttcttt-tctgcaaagatttatatgt--gaatgattctaaccgtgaa-----tcatctttgatagtttctgattggagtgcattttttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAATTGTTCAAGAATAGGATCATGGAAGAAAGGAAGC
|||| || | | ||| || ||| | | | |||| | || | | |||||| | | | | || | | | | || || |||||||||||||| || ||| ||||||| |||||||| || |||||||| ||||| ||||| |||||||| || | || |
gtaatgtatttgactcgtgtctgagttgcatttcgtgtttttttttatgtcttcatgtctttgtttcttcaaatgctcgcgtttgtcgaggctgtaatctttc-tggaatttaatccgtttacttgttgtg-gtgcagATGTGGATTGCGAAGTCGGAGTACGATGAGTCAGGTCCATCAATTGTGCACAGGAAGTGTTTCTAGAGCAGTGCGACACATCTTTTGCTTTTTTCAGCAC
upper sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S372_38V6.1 (Physcomitrella patens), 3'ss of exon 4
----------------------------------------------gtttgcttcttttctgcaaagattt---atatgtgaatgattctaaccgtgaatcatctttgatagtttctgattggagtgcattttttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAATTGTTCAAGAATAGGATCATGGAAGAAAGGAAGC-
| ||||||||| | | | | || || | ||| ||| | || | | || | | |||| | || | || | || |||||||||||||| || || | ||||| || ||||| || |||||||| ||||||||||| |||||||| | | | || | || | |
gtaaactgagtttgcatgatattttctacgttggacgtggtaaatattgaacttcttttcagttagcagtcggaatttgagtatgtttcgagaggttggttaa-ttcggt-gtttgcacatattgttctttctgtg-gtgcagATGTGGATCGCGAAATCAGAGTACGACGAGTCAGGTCCATCAATTGTGCATAGGAAGTGTTTCTAGGTAAG-ATGTATGTACCGCTTGACTTTTTCATGAC
upper sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S372_48V6.1 (Physcomitrella patens), 3'ss of exon 3
----------------------------------------------gtttgcttcttttctgcaaagattt---atatgtgaatgattctaaccgtgaatcatctttgatagtttctgattggagtgcattttttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAATTGTTCAAGAATAGGATCATGGAAGAAAGGAAGC
| ||||||||| | | | | || || | ||| ||| | || | | || | | |||| | || | || | || |||||||||||||| || || | ||||| || ||||| || |||||||| ||||||||||| ||||||||
gtaaactgagtttgcatgatattttctacgttggacgtggtaaatattgaacttcttttcagttagcagtcggaatttgagtatgtttcgagaggttggttaa-ttcggt-gtttgcacatattgttctttctgtg-gtgcagATGTGGATCGCGAAATCAGAGTACGACGAGTCAGGTCCATCAATTGTGCATAGGAAGTGTTTCTAG---------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaaccgtgaatcatctttgatagtttctgattggagtgcattttttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAATTGTTCAAGAATAGGATCATGGAAGAAAGGAAGC
catttttt CT-rich tract
attttttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgcttcttttctgcaaagatttatatgtgaatgattctaaccgtgaatcatctttgatagtttctgattggagtgcattttttgagtgcagATGTGGATAGCAAAGGCGGAGTATGATGAGTCTGGGCCATCAATCGTGCATAGGAAATGTTTCTAATTGTTCAAGAATAGGATCATGGAAGAAAGGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA